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GraphXAI: Resource to support the development and evaluation of GNN explainers
Hierarchical Graph Pooling with Structure Learning
Toolkit for calling structural variants using short or long reads
This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.
Tools in R for the Analysis and Visualization of Intervals and Scores
Evolutionary Scale Modeling (esm): Pretrained language models for proteins
R package for differential expression analysis in metatranscriptomics
Python implementations of the Boruta all-relevant feature selection method.
Pytorch implementation of various Graph Neural Networks (GNNs) for graph classification
Data for "Understanding Isomorphism Bias in Graph Data Sets" paper.
Graph convolutions in Keras with TensorFlow, PyTorch or Jax.
Machine-learning-based general bacterial promoter prediction tool.
Computes affinity between two entities based on their co-occurrence
kuijjerlab / lionessR
Forked from mararie/lionessRSingle sample network reconstruction in R
The reference implementation of FEATHER from the CIKM '20 paper "Characteristic Functions on Graphs: Birds of a Feather, from Statistical Descriptors to Parametric Models".
R wrapper around C++ implementation of MIDAS (Microcluster-Based Detector of Anomalies in Edge Streams)
Various scripts used at the EnvGen group, directed towards metagenomic analysis.
MMseqs2: ultra fast and sensitive search and clustering suite
An efficient index for the colored, compacted, de Bruijn graph
Mixtures of Gaussian graphical models for model-based clustering with sparse covariance and concentration matrices
causalMGM is an R package that allow users to learn undirected and directed (causal) graphs over mixed data types (i.e., continuous and discrete variables).